genome.fa.s851.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  4  of  31  ( 3618 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003974--1004009	2	18.0	2	100	0	72	50	0	0	50	1.00
1005772--1005872	3	34.0	3	77	5	62	57	0	0	41	1.05
1006100--1006455	139	2.6	136	78	5	367	27	17	15	39	1.90
1006487--1006808	112	2.9	113	88	3	465	28	18	14	38	1.91
1007444--1007593	54	2.8	55	79	13	152	28	22	12	37	1.90
1011169--1011203	13	2.7	13	95	0	61	68	5	20	5	1.31
1012256--1012314	24	2.5	24	88	2	84	33	25	23	16	1.96
1012305--1012407	23	4.4	23	76	2	89	38	21	21	18	1.93
1012345--1012399	24	2.3	24	81	3	67	36	20	25	18	1.94
1012305--1012407	47	2.2	46	79	5	109	38	21	21	18	1.93
1012493--1012535	15	2.8	16	83	13	54	44	18	4	32	1.71
1019291--1019349	24	2.5	23	86	2	82	32	23	25	18	1.97
1019340--1019419	23	3.4	23	79	3	106	35	23	23	17	1.96
1019340--1019429	47	1.9	48	84	6	123	34	24	22	18	1.96
1019527--1019569	15	2.8	16	83	13	54	44	18	4	32	1.71
1021089--1021187	45	2.2	45	88	0	144	42	10	24	23	1.84
1027400--1027456	22	2.6	22	97	0	105	40	15	15	28	1.88
1030173--1030254	36	2.2	37	86	2	121	18	20	14	46	1.84
1030173--1030266	36	2.6	36	78	8	109	17	21	14	46	1.83
1030245--1030330	37	2.3	37	85	0	118	23	16	15	45	1.85
1030355--1030926	45	12.7	45	83	1	646	22	15	20	41	1.89
1031287--1031568	130	2.2	131	79	1	298	32	19	14	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035950--1035998	23	2.1	23	84	0	62	59	16	12	12	1.62
1035958--1036013	23	2.4	23	84	0	67	55	17	14	12	1.69
1040385--1040411	2	13.5	2	100	0	54	0	51	0	48	1.00
1042282--1042337	20	2.7	21	88	2	78	30	25	21	23	1.99
1042337--1042418	44	1.9	41	87	7	119	32	6	28	32	1.82
1042339--1042429	19	4.4	20	76	17	105	36	5	27	30	1.80
1042881--1042975	20	4.7	20	79	7	111	22	17	27	32	1.96
1049466--1049505	15	2.7	15	92	3	64	30	15	20	35	1.93
1050964--1051021	30	2.0	29	82	3	71	46	1	0	51	1.11
1063247--1063295	18	2.6	19	80	6	55	18	18	44	18	1.87
1068810--1068859	21	2.3	21	96	3	91	26	6	8	60	1.48
1075978--1076022	21	2.1	21	100	0	90	22	4	51	22	1.66
1077037--1077082	20	2.2	20	84	3	56	32	15	26	26	1.95
1077424--1077483	30	2.0	30	87	6	86	31	5	26	36	1.78
1080456--1080480	2	12.5	2	100	0	50	0	0	48	52	1.00
1085164--1085203	2	20.0	2	84	0	53	42	0	0	57	0.98
1085164--1085203	12	3.3	12	92	0	62	42	0	0	57	0.98
1094436--1094484	17	2.9	17	100	0	98	22	16	30	30	1.96
1096913--1096974	23	2.6	24	82	10	74	30	9	3	56	1.47
1096913--1096974	25	2.6	24	82	12	74	30	9	3	56	1.47
1099745--1099796	3	17.7	3	88	4	79	71	0	28	0	0.87
1102658--1103013	176	2.0	178	97	1	680	37	14	12	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103048--1103099	23	2.4	22	84	12	63	32	26	15	25	1.95
1104330--1104538	95	2.2	95	87	3	305	38	12	21	27	1.89
1104954--1105278	45	7.2	45	87	1	454	40	13	21	24	1.89
1112490--1112814	45	7.2	45	88	0	454	42	13	19	24	1.88
1115001--1115217	47	4.8	45	85	8	269	30	20	6	41	1.79
1115001--1115217	91	2.4	91	85	5	287	30	20	6	41	1.79
1121606--1121651	23	2.0	23	86	0	65	30	21	19	28	1.98
1125817--1125863	19	2.5	19	96	3	87	27	29	10	31	1.90
1128070--1128186	36	3.2	36	68	10	94	32	17	13	36	1.89
1128254--1128445	106	1.8	103	84	6	260	34	16	12	36	1.87
1128954--1129396	122	3.6	122	79	4	500	36	24	12	26	1.91
1128957--1129404	244	1.8	245	84	4	618	36	24	12	26	1.90
1130889--1130979	32	2.8	32	84	1	119	30	16	4	48	1.66
1139869--1139906	3	13.0	3	94	5	69	65	0	0	34	0.93
1140619--1141076	55	8.3	55	90	1	704	22	18	19	39	1.93
1141178--1141290	3	37.7	3	94	0	190	34	0	0	63	1.06
1141286--1141324	9	3.8	10	84	15	53	56	2	0	41	1.13
1143468--1143505	15	2.8	13	88	11	51	23	5	2	68	1.23
1154094--1154160	10	6.9	10	84	6	77	83	0	14	1	0.72
1154109--1154160	1	52.0	1	76	0	50	88	0	11	0	0.52
1154095--1154154	21	3.0	20	85	7	77	85	0	13	1	0.69
1154106--1154160	17	3.1	17	87	10	74	87	0	12	0	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154098--1154160	30	2.1	30	90	0	99	85	0	12	1	0.66
1156199--1156955	216	3.4	217	88	4	1011	37	14	19	28	1.91
1156433--1156955	116	4.6	115	89	4	766	37	13	20	28	1.90
1157280--1157362	3	27.7	3	92	0	130	33	2	1	62	1.16
1157358--1157398	11	3.8	10	87	9	55	56	2	0	41	1.13
1161603--1161655	2	26.5	2	100	0	106	49	0	0	50	1.00
1162043--1162075	16	2.1	16	100	0	66	63	6	6	24	1.40
1164270--1164311	18	2.3	19	84	15	54	42	0	11	45	1.41
1164275--1164316	19	2.2	19	83	12	50	35	0	11	52	1.38
1177865--1177902	17	2.1	19	85	9	53	36	15	31	15	1.90
1177956--1178026	22	3.3	22	66	15	67	33	11	25	29	1.91
1177938--1178053	42	2.8	42	92	3	182	36	11	25	27	1.90
1178547--1178958	45	9.1	45	85	1	497	41	11	21	25	1.87
1178547--1179040	90	5.5	90	83	3	514	41	11	22	24	1.87
1178561--1178907	179	1.9	180	87	2	511	40	11	21	26	1.87
1178568--1179070	45	11.1	46	84	3	327	41	11	22	24	1.87
1178894--1179082	26	7.9	25	70	20	138	43	11	23	21	1.85
1178894--1179068	93	1.9	92	92	1	296	43	11	24	21	1.85
1179033--1179089	26	2.2	26	87	0	78	49	8	21	21	1.76
1181450--1181475	2	13.0	2	100	0	52	50	0	0	50	1.00
1184197--1184466	45	6.0	45	96	0	477	39	12	23	24	1.89
1184500--1184559	30	2.0	30	93	6	104	33	6	16	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184649--1184728	21	4.0	21	75	21	91	23	36	26	13	1.92
1184669--1184727	15	3.2	18	70	29	61	25	37	25	11	1.90
1184762--1184805	21	2.1	21	100	0	88	13	45	27	13	1.81
1184841--1184883	21	2.0	21	95	0	77	23	20	27	27	1.99
1184911--1184950	20	1.9	22	90	10	66	37	40	10	12	1.77
1187620--1187695	20	4.0	20	77	18	81	23	31	28	15	1.96
1187623--1187693	35	2.0	35	91	2	115	23	32	28	15	1.95
1187644--1187673	15	2.0	15	100	0	60	26	33	26	13	1.93
1187728--1187769	21	2.0	21	95	4	77	14	45	26	14	1.83
1187805--1187847	21	2.0	21	95	0	77	23	20	27	27	1.99
1187875--1187914	20	1.9	22	90	10	66	37	40	10	12	1.77
1188500--1188580	20	3.7	20	70	25	65	41	13	24	19	1.88
1188437--1188631	93	2.1	92	87	4	277	44	13	21	21	1.85
1188437--1188638	46	4.4	46	81	8	230	45	12	20	21	1.85
1188976--1189130	81	1.9	82	81	1	186	38	9	25	27	1.87
1189997--1190108	40	2.8	40	84	0	152	25	19	25	28	1.99
1193657--1193711	29	1.9	28	81	3	65	41	9	16	32	1.80
1196358--1196487	40	3.3	40	82	5	167	23	22	27	26	1.99
1197160--1197193	3	11.0	3	87	6	50	5	29	0	64	1.17
1198652--1198700	21	2.3	22	89	6	75	14	20	20	44	1.86
1200265--1200448	91	2.0	91	91	5	300	44	5	13	36	1.67
1201706--1202045	171	2.0	172	99	0	673	43	18	14	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202755--1202806	7	6.9	8	87	12	83	48	0	11	40	1.40
1202755--1202806	15	3.5	15	100	0	104	48	0	11	40	1.40
1203879--1204000	63	2.0	63	85	8	169	44	6	6	42	1.56
1219305--1219346	15	2.6	16	85	7	59	69	0	11	19	1.19
1225800--1225877	36	2.1	36	90	2	120	17	17	17	46	1.85
1227285--1227363	32	2.5	32	89	0	113	34	32	15	17	1.91
1227993--1228017	8	3.1	8	100	0	50	60	0	0	40	0.97
1230434--1230597	86	1.9	86	87	5	242	31	28	12	27	1.93
1231659--1232567	452	2.0	452	94	0	1577	38	19	13	29	1.90
1233084--1233194	25	4.3	26	86	10	158	37	33	5	23	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31